{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Marco Bonarrigo"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["RNA-seq of coding RNA"],"organism":["Triticum turgidum"],"species":["Triticum turgidum"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15975"],"description":["The increasing presence of nanoplastics in agricultural soils, particularly polystyrene nanoplastics (PSNPs), poses a novel and underestimated threat to crop productivity and food security. The impact of plastics has recently been investigated in cereals confirming that PSNPs can be absorbed by plants through the roots and subsequently translocated to other plant organs. While extensive research has focused on bread wheat, the effects of PSNPs on durum wheat (Triticum turgidum ssp. durum) remain largely unexplored. In this study, we examined the transcriptomic response to PSNPs exposure in two durum wheat lines: Kronos (wild type) and MRP3, a low-phytate mutant generated via TILLING. The MRP3 line carries deleterious mutation in the Multidrug Resistance-Associated Protein 3 (MRP3) genes, which encodes a vacuolar transporter of phytic acid."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - Non-directional libraries were prepared using the polyA enrichment kit Novogene NGS RNA Library Prep Set (PT042), based on NEB Next® Ultra™ RNA Library Prep Kit and NEB Next®.","Sample Collection - For each sample, flag leaves were cutted from 4 different samples at 7 dpa and immediately frozen in liquid nitrogen and stored at -80°C. Frozen leaves were ground to a fine powder with previously sterilized mortar and pestle using liquid nitrogen to prevent RNA degradation.","Nucleic Acid Extraction - RNA was extracted using the RNA Plant Kit (Macherey-Nagel™ NucleoSpin™, Düren, Germany).","Growth Protocol - Seedlings of the Kronos and MRP3 genotypes were grown hydroponically in a nutrient solution. After 20 days, they were transferred to plastic pots and cultivated in a growth chamber under controlled conditions. The initial settings included a temperature of +6°C and a photoperiod of 16 hours of light and 8 hours of darkness. After the vernalization period, the jiffy pots were replaced with larger plastic pots. Following 20 days at +6°C, the growth chamber conditions were adjusted to simulate spring season, maintaining the same photoperiod while setting the daytime and nighttime temperatures to +18°C and +12°C, respectively. Once the plants reached the booting stage, they were transferred to a greenhouse under semi-controlled enviroment.","Sample Treatment - Seedlings of both the Kronos and MRP3 genotypes were treated with a PSNP solution at 20-day intervals, beginning at the time of their transfer to peat jiffy pots (Zadocks scale 12). For each biological replicate (Kronos 10 mg/L, MRP3 10 mg/L), 25 mL of the treatment solution was applied directly to the soil while the plants were grown in pots. Upon transfer to 1 L pots, the treatment volume was increased to 50 mL. Control plants (Kronos 0 mg/L, MRP3 0 mg/L) received the same volume of water, without the addition of PSNPs","Sequencing - Total RNA was sequenced by Novogene (Novogene Co. Ltd., Cambridge, UK) using NovaSeq 6000 (Illumina, San Diego, CA) with paired-end 150 bp reads following the company’s standard protocols for library preparation and sequencing."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Francesco Sestili","Giuliana Bruno","Marco Bonarrigo","Samuela Palombieri"],"additional_accession":[]},"is_claimable":false,"name":"RNA-seq of leaves of two durum wheat lines in response to polystyrene nanoplastics (PSNPs) exposure","description":"The increasing presence of nanoplastics in agricultural soils, particularly polystyrene nanoplastics (PSNPs), poses a novel and underestimated threat to crop productivity and food security. The impact of plastics has recently been investigated in cereals confirming that PSNPs can be absorbed by plants through the roots and subsequently translocated to other plant organs. While extensive research has focused on bread wheat, the effects of PSNPs on durum wheat (Triticum turgidum ssp. durum) remain largely unexplored. In this study, we examined the transcriptomic response to PSNPs exposure in two durum wheat lines: Kronos (wild type) and MRP3, a low-phytate mutant generated via TILLING. The MRP3 line carries deleterious mutation in the Multidrug Resistance-Associated Protein 3 (MRP3) genes, which encodes a vacuolar transporter of phytic acid.","dates":{"release":"2026-06-25T00:00:00Z","modification":"2026-06-25T07:30:44.943Z","creation":"2025-11-03T16:25:50.854Z"},"accession":"E-MTAB-15975","cross_references":{"ENA":["ERP183601"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0005518","EFO_0003738","EFO_0004184","EFO_0003969"]}}